Origin IGS: ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatagatcagcagaagcctttgtagcagcatannnnnttaattaattaannnnnctatgcgcaagattccaaagaaggaaagctgatctactcaagaaaatttcgtagtagttcagaagtgtatcagcaccccatgatgttttaaacgtctcatgaccagagggtcgtgaaatcaa Mask Tandem Repeat Region ================================================ ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta Find is-nt database================================================ Query_seq: SMT_2018:SMT_2019|SMT_2018:SMT_2019:hypothetical protein predicted by Glimmer/Critica:dTDP-glucose 4,6-dehydratase:->->:1937017..1937193 177 ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2018:SMT_2019|SMT_2018:SMT_2019:hypothetical protein predicted by Glimmer/Critica:dTDP-glucose 4,6-dehydratase:->->:1937017..1937193 177 ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2018:SMT_2019|SMT_2018:SMT_2019:hypothetical protein predicted by Glimmer/Critica:dTDP-glucose 4,6-dehydratase:->->:1937017..1937193 177 ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 1 End: 132 M I S R P S G H E T F K T S W G A D T L L N Y Y E I F L S R S A F L L W N L A H X X X N ............................................. ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2018:SMT_2019|SMT_2018:SMT_2019:hypothetical protein predicted by Glimmer/Critica:dTDP-glucose 4,6-dehydratase:->->:1937017..1937193 177 ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta Intra-Species Hit: Count: 1 Min: 1 Max: 177 Len: 177 Subject: smit_SMT_2018_SMT_2019|hypothetical protein predicted by Glimmer/Critica:dTDP-glucose 4,6-dehydratase|POSITIVE:POSITIVE|[1937017,1937193]|177 HSP 1 e-value: 4.0E-78 bit: 291.0 Len: 177 Query Start:1 Query End:177 Subject Strand: POSITIVE Subject Start: 1 Subject End: 177 ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta ttgatttcacgaccctctggtcatgagacgtttaaaacatcatggggtgctgatacacttctgaactactacgaaattttcttgagtagatcagctttccttctttggaatcttgcgcatagnnnnnttaattaattaannnnntatgctgctacaaaggcttctgctgatctatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGAUUUCACGACCCUCUGGUCAUGAGACGUUUAAAACAUCAUGGGGUGCUGAUACACUUCUGAACUACUACGAAAUUUUCUUGAGUAGAUCAGCUUUCCUUCUUUGGAAUCUUGCGCAUAGNNNNNUUAAUUAAUUAANNNNNUAUGCUGCUACAAAGGCUUCUGCUGAUCUAUUA ..((((((..((((....)))).................(((.((((((......)))))))))........))))))......(((((((((((......((((((.......(((((((......((((....)))).....))))).))..)))))).....))))))))))). (-41.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAGAUCAGCAGAAGCCUUUGUAGCAGCAUANNNNNUUAAUUAAUUAANNNNNCUAUGCGCAAGAUUCCAAAGAAGGAAAGCUGAUCUACUCAAGAAAAUUUCGUAGUAGUUCAGAAGUGUAUCAGCACCCCAUGAUGUUUUAAACGUCUCAUGACCAGAGGGUCGUGAAAUCAA ...(((((((((.............((.(((((.....((((....))))......)))))))....((((......)))).))))))))).....((......(((..(((.(((...((((....))))....)))....))).)))..((((((((....))))))))..)).. (-40.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 116 81 180 136 smit:SMT_1199|5end_lactococcin_A_ABC_transporter_permease_protein_1161063..1161293_NEGATIVE 293 50 5 162 117 smit:SMT_726|5end_ImpB/MucB/SamB_family_protein_631827..632057_NEGATIVE 283 60 13 229 189 smit:SMT_1827|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1797568..1797798_POSITIVE 283 60 13 69 29 smit:SMT_1826|5end_ATP_synthase_beta_chain_1797408..1797638_POSITIVE 283 60 13 69 29 smit:SMT_586|5end_ATP_synthase_F1,_beta_subunit_502533..502763_POSITIVE 278 119 84 69 20 smit:SMT_360|5end_K07742_hypothetical_protein_295628..295858_POSITIVE 278 117 71 204 152 smit:SMT_309|5end_acyl-carrier-protein_S-malonyltransferase_250406..250636_POSITIVE 276 120 75 67 14 smit:SMT_1071|5end_hypothetical_protein_1010058..1010288_POSITIVE 270 115 71 225 175 smit:SMT_1727|5end_uridine_kinase_1712483..1712713_POSITIVE 267 118 72 155 104 smit:SMT_141|5end_K03495_glucose_inhibited_division_protein_A_91408..91638_POSITIVE 255 87 43 95 50 smit:SMT_629|5end_glycogen_synthase_533967..534197_POSITIVE 253 104 61 231 192 smit:SMT_1865|5end_D-alanyl_carrier_protein_1827058..1827288_POSITIVE 250 116 73 216 166 smit:SMT_1570|5end_hypothetical_protein_1563504..1563734_NEGATIVE 250 102 61 231 195 smit:SMT_1312|5end_D-alanyl_carrier_protein_1277042..1277272_POSITIVE 248 50 5 83 32 smit:SMT_1608|5end_hypothetical_protein_1597595..1597825_POSITIVE 246 57 15 44 13 smit:SMT_271|5end_autoinducer-2_production_protein_211736..211966_NEGATIVE 245 109 61 173 122 smit:SMT_1647|5end_3-isopropylmalate_dehydratase_small_subunit_1633403..1633633_POSITIVE 242 45 8 167 130 smit:SMT_2098|5end_similar_to_CDP-ribitol_pyrophosphorylase_1991376..1991606_POSITIVE 242 60 11 134 83 smit:SMT_1642|5end_K03497_chromosome_partitioning_protein,_ParB_family_1628996..1629226_NEGATIVE 240 53 11 165 128 smit:SMT_1871|5end_modification_methylase,_HemK_family_1830501..1830731_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 272 59 14 99 54 smit:SMT_1441|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1424887..1425037_NEGATIVE 270 115 71 115 65 smit:SMT_1726|3end_tRNA_pseudouridine_synthase_B_1712453..1712603_POSITIVE 255 87 43 98 53 smit:SMT_628|3end_glucose-1-phosphate_adenylyltransferase,_GlgD_subunit_534050..534200_POSITIVE 248 50 5 107 56 smit:SMT_1607|3end_K03341_putative_deoxyribonucleotide_triphosphate_pyrophosphatase_1597699..1597849_POSITIVE 238 105 65 70 16 smit:SMT_1976|3end_immunoglobulin_A1_protease_1907713..1907863_POSITIVE 235 51 14 151 118 smit:SMT_1847|3end_hypothetical_protein_1812697..1812847_POSITIVE 231 83 41 73 26 smit:SMT_1643|3end_2-isopropylmalate_synthase_1630772..1630922_POSITIVE 231 118 80 126 78 smit:SMT_994|3end_nicotinate-nucleotide_adenylyltransferase_935476..935626_NEGATIVE 230 116 72 84 22 smit:SMT_133|3end_L-serine_dehydratase_beta_subunit_84566..84716_NEGATIVE 228 117 72 102 54 smit:SMT_1872|3end_K03217_preprotein_translocase_YidC_subunit_1830883..1831033_NEGATIVE 228 47 2 132 86 smit:SMT_1723|3end_hypothetical_protein_1709724..1709874_POSITIVE 227 116 76 59 19 smit:SMT_1570|3end_hypothetical_protein_1563250..1563400_NEGATIVE 227 60 11 89 41 smit:SMT_586|3end_ATP_synthase_F1,_beta_subunit_504019..504169_POSITIVE 224 50 2 68 20 smit:SMT_2057|3end_cell_division_protein_FtsH_1966897..1967047_NEGATIVE 224 76 45 64 35 smit:SMT_533|3end_RNA_binding_protein_453537..453687_POSITIVE 224 76 45 64 35 smit:SMT_530|3end_RNA_binding_protein_452638..452788_POSITIVE 224 76 45 64 35 smit:SMT_526|3end_RNA_binding_protein_451468..451618_POSITIVE 224 76 45 64 35 smit:SMT_510|3end_hypothetical_protein_439357..439507_POSITIVE 222 120 80 137 99 smit:SMT_1939|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1876453..1876603_POSITIVE 220 89 43 140 95 smit:SMT_1646|3end_3-isopropylmalate_dehydratase_large_subunit_1633473..1633623_POSITIVE